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<a href="#nested-classes">Classes</a> &#124;
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<p><code>#include &lt;<a class="el" href="_tree_builder_manager_8hpp_source.html">TreeBuilderManager.hpp</a>&gt;</code></p>
<table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-types"></a>
Public Types</h2></td></tr>
<tr class="memitem:af1e010b6d69ec4c8a7860041ba823b68"><td class="memItemLeft" align="right" valign="top">enum &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#af1e010b6d69ec4c8a7860041ba823b68">InputType</a> { <a class="el" href="class_tree_builder_manager.html#af1e010b6d69ec4c8a7860041ba823b68a5496170f117c3d558853e10ccee02666">alignment</a>, 
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<tr class="memitem:ae26c0058859fbe67055a43f55b7c5008"><td class="memItemLeft" align="right" valign="top">enum &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#ae26c0058859fbe67055a43f55b7c5008">AlphabetType</a> { <a class="el" href="class_tree_builder_manager.html#ae26c0058859fbe67055a43f55b7c5008a9cf0eb2046097228c5269e9da5e47cba">dna</a>, 
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<tr class="memitem:a373cf550fdc215fc25daf72e40b56a8d"><td class="memItemLeft" align="right" valign="top">enum &#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#a373cf550fdc215fc25daf72e40b56a8d">CorrectionType</a> { <br />
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<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-methods"></a>
Public Member Functions</h2></td></tr>
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Public Attributes</h2></td></tr>
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<tr class="memitem:a7e62c0d18ca2e9782f6e1f689b4388d4"><td class="memItemLeft" align="right" valign="top">std::string&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#a7e62c0d18ca2e9782f6e1f689b4388d4">njTmpDir</a></td></tr>
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<tr class="memitem:a0efd9a961ff0dd21dc150202ad0dab65"><td class="memItemLeft" align="right" valign="top">FILE *&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#a0efd9a961ff0dd21dc150202ad0dab65">outFile</a></td></tr>
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<tr class="memitem:a3047ef12674cd2feab230d5445ec057e"><td class="memItemLeft" align="right" valign="top"><a class="el" href="class_tree_builder_manager.html#ae26c0058859fbe67055a43f55b7c5008">AlphabetType</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#a3047ef12674cd2feab230d5445ec057e">alphType</a></td></tr>
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<tr class="memitem:adf86247bbac061e015008cf779aa1922"><td class="memItemLeft" align="right" valign="top"><a class="el" href="class_tree_builder_manager.html#a373cf550fdc215fc25daf72e40b56a8d">CorrectionType</a>&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#adf86247bbac061e015008cf779aa1922">corrType</a></td></tr>
<tr class="separator:adf86247bbac061e015008cf779aa1922"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a150db90e2abf2fc03731688eb898bbb3"><td class="memItemLeft" align="right" valign="top">std::string&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#a150db90e2abf2fc03731688eb898bbb3">chars</a></td></tr>
<tr class="separator:a150db90e2abf2fc03731688eb898bbb3"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:ac022773150741a88a56920d768b366d4"><td class="memItemLeft" align="right" valign="top">int&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#ac022773150741a88a56920d768b366d4">threads</a></td></tr>
<tr class="separator:ac022773150741a88a56920d768b366d4"><td class="memSeparator" colspan="2">&#160;</td></tr>
<tr class="memitem:a4c60ce04a47c306072401de1d9d83571"><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#a4c60ce04a47c306072401de1d9d83571">newDistanceMethod</a></td></tr>
<tr class="separator:a4c60ce04a47c306072401de1d9d83571"><td class="memSeparator" colspan="2">&#160;</td></tr>
</table><table class="memberdecls">
<tr class="heading"><td colspan="2"><h2 class="groupheader"><a name="pub-static-attribs"></a>
Static Public Attributes</h2></td></tr>
<tr class="memitem:a9ae531e04f5efb9fe8228ede332404dd"><td class="memItemLeft" align="right" valign="top">static const int&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="class_tree_builder_manager.html#a9ae531e04f5efb9fe8228ede332404dd">NUM_RAND_DIR_CHARS</a> = 6</td></tr>
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</table>
<h2 class="groupheader">Member Enumeration Documentation</h2>
<a id="ae26c0058859fbe67055a43f55b7c5008"></a>
<h2 class="memtitle"><span class="permalink"><a href="#ae26c0058859fbe67055a43f55b7c5008">&#9670;&nbsp;</a></span>AlphabetType</h2>

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<tr><td class="fieldname"><a id="ae26c0058859fbe67055a43f55b7c5008a229d43ec692cb711e87fa15d1a163c4a"></a>null&#160;</td><td class="fielddoc"></td></tr>
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<a id="a373cf550fdc215fc25daf72e40b56a8d"></a>
<h2 class="memtitle"><span class="permalink"><a href="#a373cf550fdc215fc25daf72e40b56a8d">&#9670;&nbsp;</a></span>CorrectionType</h2>

<div class="memitem">
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<tr><th colspan="2">Enumerator</th></tr><tr><td class="fieldname"><a id="a373cf550fdc215fc25daf72e40b56a8da6a180df7a39a3dd2e0f2283fbdc9c9eb"></a>not_assigned&#160;</td><td class="fielddoc"></td></tr>
<tr><td class="fieldname"><a id="a373cf550fdc215fc25daf72e40b56a8daa48e32132856572cccb189cd72e521c7"></a>none&#160;</td><td class="fielddoc"></td></tr>
<tr><td class="fieldname"><a id="a373cf550fdc215fc25daf72e40b56a8da78e91f6ce40102b0d61e8b9d51750638"></a>JukesCantor&#160;</td><td class="fielddoc"></td></tr>
<tr><td class="fieldname"><a id="a373cf550fdc215fc25daf72e40b56a8dae1e7c68b84de2d982d8fc029b480cc17"></a>Kimura2&#160;</td><td class="fielddoc"></td></tr>
<tr><td class="fieldname"><a id="a373cf550fdc215fc25daf72e40b56a8da7bff75f1893babce718611848369ad04"></a>FastTree&#160;</td><td class="fielddoc"></td></tr>
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<a id="af1e010b6d69ec4c8a7860041ba823b68"></a>
<h2 class="memtitle"><span class="permalink"><a href="#af1e010b6d69ec4c8a7860041ba823b68">&#9670;&nbsp;</a></span>InputType</h2>

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          <td class="memname">enum <a class="el" href="class_tree_builder_manager.html#af1e010b6d69ec4c8a7860041ba823b68">TreeBuilderManager::InputType</a></td>
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<tr><th colspan="2">Enumerator</th></tr><tr><td class="fieldname"><a id="af1e010b6d69ec4c8a7860041ba823b68a5496170f117c3d558853e10ccee02666"></a>alignment&#160;</td><td class="fielddoc"></td></tr>
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<h2 class="groupheader">Constructor &amp; Destructor Documentation</h2>
<a id="a1c1e9bc07025dd5160ac37277c10647a"></a>
<h2 class="memtitle"><span class="permalink"><a href="#a1c1e9bc07025dd5160ac37277c10647a">&#9670;&nbsp;</a></span>TreeBuilderManager()</h2>

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<h2 class="groupheader">Member Function Documentation</h2>
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<h2 class="memtitle"><span class="permalink"><a href="#a82bd45375c241cc86bf5d26f4fef05ed">&#9670;&nbsp;</a></span>doJob()</h2>

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<h2 class="groupheader">Member Data Documentation</h2>
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<h2 class="memtitle"><span class="permalink"><a href="#a3047ef12674cd2feab230d5445ec057e">&#9670;&nbsp;</a></span>alphType</h2>

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          <td class="memname"><a class="el" href="class_tree_builder_manager.html#ae26c0058859fbe67055a43f55b7c5008">AlphabetType</a> TreeBuilderManager::alphType</td>
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<h2 class="memtitle"><span class="permalink"><a href="#a150db90e2abf2fc03731688eb898bbb3">&#9670;&nbsp;</a></span>chars</h2>

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<h2 class="memtitle"><span class="permalink"><a href="#adf86247bbac061e015008cf779aa1922">&#9670;&nbsp;</a></span>corrType</h2>

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          <td class="memname"><a class="el" href="class_tree_builder_manager.html#a373cf550fdc215fc25daf72e40b56a8d">CorrectionType</a> TreeBuilderManager::corrType</td>
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<h2 class="memtitle"><span class="permalink"><a href="#ac2e2786055dddad38c1bdce4087638e8">&#9670;&nbsp;</a></span>inFile</h2>

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          <td class="memname"><a class="el" href="class_tree_builder_manager.html#af1e010b6d69ec4c8a7860041ba823b68">InputType</a> TreeBuilderManager::inType</td>
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<h2 class="memtitle"><span class="permalink"><a href="#a4c1a65ed414d8317911abe3d4f704bf6">&#9670;&nbsp;</a></span>method</h2>

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<h2 class="memtitle"><span class="permalink"><a href="#a5710efedbd3702d1dc95d0722e757351">&#9670;&nbsp;</a></span>names</h2>

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<h2 class="memtitle"><span class="permalink"><a href="#a4c60ce04a47c306072401de1d9d83571">&#9670;&nbsp;</a></span>newDistanceMethod</h2>

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<h2 class="memtitle"><span class="permalink"><a href="#a7e62c0d18ca2e9782f6e1f689b4388d4">&#9670;&nbsp;</a></span>njTmpDir</h2>

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<h2 class="memtitle"><span class="permalink"><a href="#a9ae531e04f5efb9fe8228ede332404dd">&#9670;&nbsp;</a></span>NUM_RAND_DIR_CHARS</h2>

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<h2 class="memtitle"><span class="permalink"><a href="#a0efd9a961ff0dd21dc150202ad0dab65">&#9670;&nbsp;</a></span>outFile</h2>

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<h2 class="memtitle"><span class="permalink"><a href="#abdf50c04e7fbf7355186615c94738940">&#9670;&nbsp;</a></span>outType</h2>

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          <td class="memname"><a class="el" href="class_tree_builder_manager.html#a4cd821248549c591777002b96d1b1f17">OutputType</a> TreeBuilderManager::outType</td>
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<h2 class="memtitle"><span class="permalink"><a href="#ac022773150741a88a56920d768b366d4">&#9670;&nbsp;</a></span>threads</h2>

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<hr/>The documentation for this class was generated from the following files:<ul>
<li>NINJA/<a class="el" href="_tree_builder_manager_8hpp_source.html">TreeBuilderManager.hpp</a></li>
<li>NINJA/<a class="el" href="_tree_builder_manager_8cpp.html">TreeBuilderManager.cpp</a></li>
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